Experiment: 2I07

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2A73	2A73, 2A74, 1C3D
experimental model	PDB	2A74	2A73, 2A74, 1C3D
experimental model	PDB	1C3D	2A73, 2A74, 1C3D

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.8	303	PEG-MME 2000, sodium acetate, Bis-Tris propane, taurine, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 303K

Crystal Properties
Matthews coefficient	Solvent content
3.33	63.12

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 123.91	α = 90
b = 128.537	β = 90
c = 147.034	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 315		2006-02-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.9395	ESRF	ID14-4

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	4	45	99.8	0.149	10.1	5.3	20515	20474			100

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	4	4.22	100		0.713	2	5.5	2911

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2A73, 2A74, 1C3D	4	45	20412	20474	1045	99.7	0.275	0.27524	0.27259	0.32293	RANDOM	174.051

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
1.29			14.01		-15.31

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.06
r_dihedral_angle_3_deg	14.389
r_dihedral_angle_4_deg	12.092
r_dihedral_angle_1_deg	4.378
r_angle_refined_deg	0.74
r_nbtor_refined	0.328
r_symmetry_hbond_refined	0.259
r_symmetry_vdw_refined	0.253
r_nbd_refined	0.233
r_xyhbond_nbd_refined	0.221

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.06
r_dihedral_angle_3_deg	14.389
r_dihedral_angle_4_deg	12.092
r_dihedral_angle_1_deg	4.378
r_angle_refined_deg	0.74
r_nbtor_refined	0.328
r_symmetry_hbond_refined	0.259
r_symmetry_vdw_refined	0.253
r_nbd_refined	0.233
r_xyhbond_nbd_refined	0.221
r_chiral_restr	0.052
r_bond_refined_d	0.004
r_gen_planes_refined	0.002
r_mcbond_it
r_mcangle_it
r_scbond_it
r_scangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	12104
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	53

Software

Software
Software Name	Purpose
REFMAC	refinement
DNA	data collection
MOSFLM	data reduction
CCP4	data scaling
PHASER	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.